Hi everyone,
I'm looking for a tool that could help to assign automatically microbial attributes (e.g. oxidative/non-oxidative metabolism, G+/G-, human diseases causation, endospores formation etc.) on the basis of 16S amplicon sequencing (either sequences or taxonomic assignment).
My expectations are:
- free software
- with or without GUI
- Win/Unix platforms
I found that functionality in Megan (https://ab.inf.uni-tuebingen.de) but it is only available in the paid version, not in the community edition.
I'm also using picrust and picrust2 software, but here we can predict functional pathways/genes what is not I'm currently looking for.
Thank you in advance for help.
Hi.,
Amplicon sequencing of the 16S ribosomal RNA (rRNA) gene is widely used for microbes are present by matching 16S rRNA sequence variants to reference any statement about time scales (nor phylogenetic scales) over which traits vary. and. IMG IDs were translated to GG2013 sequence IDs .. Analyze of 16S rRNA sequencing data using the mothur toolsuite in Galaxy ... The 16S rRNA gene has several properties that make it ideally..
For more info:
Article Impact of 16S rRNA Gene Sequence Analysis for Identification...
C K Gomathy Thank you for the answer, but this is not what I'm looking for.
My question was about the automatic pipeline to get the information about phenotypic traits from the taxonomy, similarly to what Megan Ultimate Edition does. You just need to upload your taxonomy table and the software compare it to the database and infer e.g. Gram stain, endospores formation, diseases etc.
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